Data
Normalization
Model options
Network processing
cor/cov method: pearson
Data
Normalization
See prepare.tcga.survival.data function for how to configure parameters.
This uses data packages from obtained from ‘github:averissimo/tcga’ that contain FPKM expression levels.
prepare.tcga.survival.data('brca.data.2018.09.13',
'primary.solid.tumor',
normalization = 'center',
log2.pre.normalize = TRUE,
handle.duplicates = 'keep_first',
coding.genes = TRUE,
subtract.surv.column = '')
## [INFO] Loaded data from TCGA: brca.data.2018.09.13
## [INFO] type of tissue: primary.solid.tumor
## [INFO] observations (individuals): 960 (137 event / 823 censored)
## [INFO] variables (genes): 19874
Network processing
cor/cov method: pearson
trans.fun is a double power to scale the valuessee ?glmSparseNet::heuristicScale or ?glmSparseNet::hubHeuristic
# see ?glmSparseNet::heuristic.scale
trans.fun <- function(x) {
heuristicScale(x) + 0.2
}
| ensembl_gene_id | degree | external_gene_name |
|---|---|---|
| ENSG00000150991 | 10394 | ENSG00000150991 |
| ENSG00000170325 | 6346 | ENSG00000170325 |
| ENSG00000100300 | 5797 | ENSG00000100300 |
| ENSG00000174775 | 5614 | ENSG00000174775 |
| ENSG00000142208 | 5573 | ENSG00000142208 |
| ENSG00000111640 | 5363 | ENSG00000111640 |
| ENSG00000163631 | 5260 | ENSG00000163631 |
| ENSG00000177606 | 4952 | ENSG00000177606 |
| ENSG00000141510 | 4936 | ENSG00000141510 |
| ENSG00000197122 | 4903 | ENSG00000197122 |
| ENSG00000254647 | 4592 | ENSG00000254647 |
| ENSG00000112062 | 4187 | ENSG00000112062 |
| ENSG00000170315 | 4114 | ENSG00000170315 |
| ENSG00000170345 | 4010 | ENSG00000170345 |
## [INFO] Size of sets: (size/events)
## * Train: 80.00% :: 767 / 109
## * Test: 20.00% :: 193 / 28
## [INFO] Number of variables per model:
| Model | BaseModel | Alpha | TargetVars | nvars |
|---|---|---|---|---|
| Elastic Net | Elastic Net | 0.20 | 39 | 42 |
| Hub | Elastic Net | 0.20 | 39 | 40 |
| Orphan | Elastic Net | 0.20 | 39 | 44 |
| Elastic Net | Hub | 0.20 | 56 | 61 |
| Hub | Hub | 0.20 | 56 | 56 |
| Orphan | Hub | 0.20 | 56 | 56 |
| Elastic Net | Orphan | 0.20 | 42 | 42 |
| Hub | Orphan | 0.20 | 42 | 43 |
| Orphan | Orphan | 0.20 | 42 | 44 |
## [INFO] note, selected variables could be slightly different from target, to have more accuracy increase nlambda in code
Calculated using the inferred models and the train/test datasets. The higher the better.
| weighted | penalization | project | tissue | cutoff | coding.genes | alpha | model | nvars | km.train | km.test | c.index.train | c.index.test |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| FALSE | string | brca.data.2018.09.13 | primary.solid.tumor | 0 | TRUE | 0.20 | Elastic Net | 42 | 0 | 0.9662943 | 0.7971044 | 0.5039722 |
| FALSE | string | brca.data.2018.09.13 | primary.solid.tumor | 0 | TRUE | 0.20 | Hub | 40 | 0 | 0.6129730 | 0.7768119 | 0.5014896 |
| FALSE | string | brca.data.2018.09.13 | primary.solid.tumor | 0 | TRUE | 0.20 | Orphan | 44 | 0 | 0.0772603 | 0.7989650 | 0.5541212 |
| FALSE | string | brca.data.2018.09.13 | primary.solid.tumor | 0 | TRUE | 0.20 | Elastic Net | 61 | 0 | 0.8186616 | 0.8208565 | 0.5029791 |
| FALSE | string | brca.data.2018.09.13 | primary.solid.tumor | 0 | TRUE | 0.20 | Hub | 56 | 0 | 0.2957594 | 0.8025700 | 0.5168818 |
| FALSE | string | brca.data.2018.09.13 | primary.solid.tumor | 0 | TRUE | 0.20 | Orphan | 56 | 0 | 0.1326391 | 0.8269326 | 0.5705065 |
| FALSE | string | brca.data.2018.09.13 | primary.solid.tumor | 0 | TRUE | 0.20 | Elastic Net | 42 | 0 | 0.9662943 | 0.7971044 | 0.5039722 |
| FALSE | string | brca.data.2018.09.13 | primary.solid.tumor | 0 | TRUE | 0.20 | Hub | 43 | 0 | 0.4280535 | 0.7813763 | 0.5064548 |
| FALSE | string | brca.data.2018.09.13 | primary.solid.tumor | 0 | TRUE | 0.20 | Orphan | 44 | 0 | 0.0772603 | 0.7989650 | 0.5541212 |
(not running at the moment)
| metric | model | base.model | target.vars | alpha | mean | std | median | min |
|---|---|---|---|---|---|---|---|---|
| C-Index (Test set) | Hub | Elastic Net | 39 | 0.20 | 0.580 | 0.061 | 0.580 | 0.356 |
| C-Index (Test set) | Hub | Hub | 56 | 0.20 | 0.598 | 0.060 | 0.599 | 0.377 |
| C-Index (Test set) | Hub | Orphan | 42 | 0.20 | 0.584 | 0.061 | 0.584 | 0.358 |
| C-Index (Test set) | Elastic Net | Elastic Net | 39 | 0.20 | 0.549 | 0.064 | 0.550 | 0.325 |
| C-Index (Test set) | Elastic Net | Hub | 56 | 0.20 | 0.564 | 0.063 | 0.565 | 0.34 |
| C-Index (Test set) | Elastic Net | Orphan | 42 | 0.20 | 0.552 | 0.063 | 0.552 | 0.325 |
| C-Index (Test set) | Orphan | Elastic Net | 39 | 0.20 | 0.560 | 0.062 | 0.561 | 0.327 |
| C-Index (Test set) | Orphan | Hub | 56 | 0.20 | 0.574 | 0.062 | 0.575 | 0.344 |
| C-Index (Test set) | Orphan | Orphan | 42 | 0.20 | 0.563 | 0.062 | 0.564 | 0.337 |
| Log-rank (Test set) | Hub | Elastic Net | 39 | 0.20 | 0.299 | 0.284 | 0.199 | 4.15e-06 |
| Log-rank (Test set) | Hub | Hub | 56 | 0.20 | 0.248 | 0.265 | 0.141 | 2.02e-06 |
| Log-rank (Test set) | Hub | Orphan | 42 | 0.20 | 0.287 | 0.279 | 0.182 | 5.26e-06 |
| Log-rank (Test set) | Elastic Net | Elastic Net | 39 | 0.20 | 0.385 | 0.297 | 0.319 | 9.78e-06 |
| Log-rank (Test set) | Elastic Net | Hub | 56 | 0.20 | 0.351 | 0.292 | 0.276 | 1.72e-05 |
| Log-rank (Test set) | Elastic Net | Orphan | 42 | 0.20 | 0.379 | 0.297 | 0.312 | 9.42e-06 |
| Log-rank (Test set) | Orphan | Elastic Net | 39 | 0.20 | 0.364 | 0.290 | 0.297 | 1.36e-06 |
| Log-rank (Test set) | Orphan | Hub | 56 | 0.20 | 0.332 | 0.286 | 0.250 | 6.47e-06 |
| Log-rank (Test set) | Orphan | Orphan | 42 | 0.20 | 0.358 | 0.290 | 0.291 | 1.27e-06 |
| base.model | r.squared |
|---|---|
| Elastic Net with target nvars: 39 alpha: 0.20 | 0.2841928 |
| Hub with target nvars: 56 alpha: 0.20 | 0.3134625 |
| Orphan with target nvars: 42 alpha: 0.20 | 0.2907192 |
| base.model | r.squared |
|---|---|
| Elastic Net with target nvars: 39 alpha: 0.20 | 0.7324494 |
| Hub with target nvars: 56 alpha: 0.20 | 0.7701956 |
| Orphan with target nvars: 42 alpha: 0.20 | 0.7412038 |
| base.model | r.squared |
|---|---|
| Elastic Net with target nvars: 39 alpha: 0.20 | 0.2411301 |
| Hub with target nvars: 56 alpha: 0.20 | 0.2623140 |
| Orphan with target nvars: 42 alpha: 0.20 | 0.2451925 |
| metric | model | base.model | target.vars | alpha | mean | std | median | min |
|---|---|---|---|---|---|---|---|---|
| C-Index (Train set) | Hub | Elastic Net | 39 | 0.20 | 0.767 | 0.017 | 0.768 | 0.7 |
| C-Index (Train set) | Hub | Hub | 56 | 0.20 | 0.806 | 0.014 | 0.806 | 0.755 |
| C-Index (Train set) | Hub | Orphan | 42 | 0.20 | 0.775 | 0.016 | 0.776 | 0.706 |
| C-Index (Train set) | Elastic Net | Elastic Net | 39 | 0.20 | 0.806 | 0.021 | 0.807 | 0.723 |
| C-Index (Train set) | Elastic Net | Hub | 56 | 0.20 | 0.836 | 0.017 | 0.837 | 0.768 |
| C-Index (Train set) | Elastic Net | Orphan | 42 | 0.20 | 0.812 | 0.020 | 0.813 | 0.73 |
| C-Index (Train set) | Orphan | Elastic Net | 39 | 0.20 | 0.805 | 0.019 | 0.806 | 0.734 |
| C-Index (Train set) | Orphan | Hub | 56 | 0.20 | 0.834 | 0.017 | 0.835 | 0.758 |
| C-Index (Train set) | Orphan | Orphan | 42 | 0.20 | 0.810 | 0.019 | 0.811 | 0.736 |
| Log-rank (Train set) | Hub | Elastic Net | 39 | 0.20 | 0.000 | 0.000 | 0.000 | 0 |
| Log-rank (Train set) | Hub | Hub | 56 | 0.20 | 0.000 | 0.000 | 0.000 | 0 |
| Log-rank (Train set) | Hub | Orphan | 42 | 0.20 | 0.000 | 0.000 | 0.000 | 0 |
| Log-rank (Train set) | Elastic Net | Elastic Net | 39 | 0.20 | 0.000 | 0.000 | 0.000 | 0 |
| Log-rank (Train set) | Elastic Net | Hub | 56 | 0.20 | 0.000 | 0.000 | 0.000 | 0 |
| Log-rank (Train set) | Elastic Net | Orphan | 42 | 0.20 | 0.000 | 0.000 | 0.000 | 0 |
| Log-rank (Train set) | Orphan | Elastic Net | 39 | 0.20 | 0.000 | 0.000 | 0.000 | 0 |
| Log-rank (Train set) | Orphan | Hub | 56 | 0.20 | 0.000 | 0.000 | 0.000 | 0 |
| Log-rank (Train set) | Orphan | Orphan | 42 | 0.20 | 0.000 | 0.000 | 0.000 | 0 |
Distribution of Log-rank test with groups separated by high and low risk groups
Distribution of Log-rank test with groups separated by high and low risk groups
| base.model | r.squared |
|---|---|
| Elastic Net with target nvars: 39 alpha: 0.20 | 0.0499714 |
| Hub with target nvars: 56 alpha: 0.20 | 0.0653053 |
| Orphan with target nvars: 42 alpha: 0.20 | 0.0571560 |
| base.model | r.squared |
|---|---|
| Elastic Net with target nvars: 39 alpha: 0.20 | 0.2351056 |
| Hub with target nvars: 56 alpha: 0.20 | 0.2878296 |
| Orphan with target nvars: 42 alpha: 0.20 | 0.2411614 |
| base.model | r.squared |
|---|---|
| Elastic Net with target nvars: 39 alpha: 0.20 | 0.0447436 |
| Hub with target nvars: 56 alpha: 0.20 | 0.0523259 |
| Orphan with target nvars: 42 alpha: 0.20 | 0.0520578 |
i.e. with pvalue < 0.05 in Log-rank test using the test set.
i.e. with pvalue < 0.05 in Log-rank test using the test set.
| Gene | Overlap | total |
|---|---|---|
| FLT3 | 2 | 5037 |
| TBP | 2 | 4139 |
| CDK14 | 2 | 3827 |
| PRDM10 | 1 | 3761 |
| UBD | 2 | 3752 |
| NRAS | 2 | 3745 |
| JAK2 | 1 | 3716 |
| WWOX | 2 | 3703 |
| LRP11 | 2 | 3691 |
| RBMY1E | 2 | 3650 |
| RAC1 | 1 | 3650 |
| CLEC3A | 2 | 3637 |
| UBC | 1 | 3633 |
| MAFA | 2 | 3625 |
| LEF1 | 2 | 3586 |
| FAU | 1 | 3550 |
| MAPK11 | 1 | 3480 |
| AC117457.1 | 2 | 3351 |
| HRAS | 1 | 3298 |
| LCE3C | 2 | 3295 |
FLT3(5037), TBP(4139), CDK14(3827), PRDM10(3761), UBD(3752), NRAS(3745), JAK2(3716), WWOX(3703), LRP11(3691), RBMY1E(3650), RAC1(3650), CLEC3A(3637), UBC(3633), MAFA(3625), LEF1(3586), FAU(3550), MAPK11(3480), AC117457.1(3351), HRAS(3298), LCE3C(3295), KIR2DP1(3212), F2(3212), NOTCH1(3151), TSPO(3143), PRKG2(3092), PIK3CA(3062), VSIG8(3036), HSP90AA1(2928), HNRNPC(2848), RAC3(2829), CTNNB1(2803), UBL4B(2785), NOS1(2779), RPS6KA1(2745), UBL4A(2720), LCE3D(2693), TRIM64(2674), LHFPL3(2673), RAC2(2671), SLITRK3(2662), JUN(2583), GAPDH(2560), ZPBP2(2556), PTCHD4(2534), KAT2B(2495), POTEE(2473), EDA2R(2433), NCOR1P1(2387), ELOA3C(2373), EPB41L4B(2357), APOOL(2319), MAPK12(2269), FEZF2(2261), EXD1(2259), LRRFIP2(2248), SLC16A2(2180), HSPA2(2161), SERPINA1(2153), REM2(2122), MAGEB6B(2093), NOS3(2084), ZMAT3(2060), BUB1B-PAK6(2024), MAPK3(2014), SMIM27(2012), PSPC1(1986), ACTL6B(1935), WDFY2(1883), CLRN2(1829), CEL(1822), CD1E(1806), NOS2(1742), TP53(1703), ABCB5(1692), CXorf49B(1663), ELP6(1631), SMIM24(1620), YWHAB(1615), ACTC1(1506), PTCHD4(1501), SPANXD(1451), STBD1(1446), DNAH8(1432), PCDHGA2(1424), DEFB130A(1417), SKOR2(1407), KCNMB2(1395), AKT1(1394), APOH(1389), SRC(1370), YES1(1368), LRRC14B(1334), OR2T5(1318), PELO(1312), L1CAM(1311), ALB(1286), DEFB106B(1282), HSPA8(1282), WT1(1277), CD8A(1273), NFKBIA(1268), PRKN(1268), CPLX3(1263), RHOA(1262), SEMA3B(1260), SIAH2(1249), SPRR2G(1247), ERICH4(1216), FGFR1(1195), USP17L17(1157), DNAAF4(1132), CPLX2(1115), DMC1(1095), TBPL2(1086), RIOX1(1081), TYRO3(1064), SLITRK3(1039), CD8A(1039), FAM71A(1030), CLEC4G(1023), KCNK3(1021), AMBN(1017), PRAMEF17(1017), GUCY2D(1012), XKR7(998), OR10P1(997), KLHDC7B(996), PYY3(994), TMEM31(986), PLA2G1B(951), FOXD1(939), ACTG2(929), AL355987.3(922), PRAMEF19(917), AL049844.3(904), PSME2(886), PGK1(867), FOS(867), CCDC97(858), IL13RA2(856), GON7(842), RPH3A(839), SRRM5(837), CD99L2(833), TUBB4A(820), OAS1(786), C1orf226(785), MAPK1(782), SPRR4(776), TCP1(775), FO681492.1(772), KRAS(767), OPN4(763), C2CD2(753), EGFR(752), INPP5A(740), GREB1L(740), XG(721), SPATA31E1(717), CR1L(717), IMPDH2(716), CLEC4M(710), MAPK14(709), FIBCD1(705), CIB4(686), UBB(680), IGF1R(666), FOXJ1(655), BCL2(655), SERINC4(654), IMPDH2(651), SUN3(645), IL27RA(643), TCL6(632), FGFR3(623), SSX7(619), PAK6(618), BRD4(617), ZBED6CL(615), PCSK1(612), CDK1(610), SPPL2C(599), MAGEB4(589), C1orf53(581), CCDC83(574), RPL5(573), ENSG00000281028(572), SH3BP1(571), GDPGP1(570), OPN4(569), CDKN1A(565), PCSK1(565), RANBP2(563), CAT(558), HDGFL1(557), NFKBIE(552), CDC42(544), ACTA1(542), NGB(534), CPEB1(533), DDAH1(526), ACTL8(520), ACTA2(509), SPP2(508), LRRC8D(502), PCDHA1(499), TUBA3D(498), ABCG4(492), SMARCA2(487), SPIB(481), LHX5(476), SHISAL2A(473), XRCC1(471), EPHA3(470), CCDC187(468), TRIM67(462), ESRRG(456), TEKT2(455), TMEM251(445), PDGFRB(442), CD1B(441), RHOU(434), RPL5(431), VWC2(430), CST1(427), IGFBPL1(425), NLRP2(424), LCE3E(419), SIPA1L1(411), C8orf33(401), FLT1(399), USP17L17(399), ADGRL3(398), STXBP5(396), C11orf95(393), QRFPR(390), SNAPC2(388), RHOH(387), DSCAML1(386), PCMT1(385), LINC00115(384), CCSER1(383), TMEM120B(381), WT1(378), CXCL13(376), APOA5(374), TOP2A(373), RABL2A(370), TMEM69(356), RAPGEFL1(353), IL18(353), EPHA3(346), ATP8A2(344), HYAL3(335), ADGRG6(333), ERP27(332), CLIC6(332), PCMT1(330), NFKB1(329), RAP1GAP2(328), TOR1B(328), GSTM4(324), IFNG(317), TBPL2(317), TUNAR(313), EHMT2(312), RTL8B(303), APOBEC3D(297), DECR1(285), NXNL2(284), FUZ(283), ARMC12(282), GPR152(282), SHISAL1(277), AC069503.2(275), SNW1(274), IWS1(269), RELB(266), RIPK4(266), CHTF8(264), MORN3(261), DEF6(260), REM1(259), KDR(259), HDAC3(258), KLRC1(253), PROSER2(250), ZBED2(248), ACBD5(247), SFMBT1(246), RPL14(246), TGFB1(245), LRRC37A6P(243), MAP3K3(242), SLC35G2(238), HYAL1(235), ROPN1L(233), KRTAP1-4(228), H2BU1(227), RPS18(227), YWHAH(220), PTPN23(217), PCDHGB5(217), PIRT(212), MGAM(210), DPEP2NB(209), CCL1(209), RUNX1(208), UMPS(207), SSTR1(206), GNA11(205), CST7(198), C17orf99(195), YBEY(192), LTA4H(190), PRR20A(188), NMNAT2(185), CASP7(185), CD24(184), DAXX(184), PIGF(182), RBBP8(182), VGF(181), CXorf56(179), PCYT1A(178), CASP7(177), RDH11(177), DEFB104B(175), TMEM233(175), PPIB(174), MYC(173), OSGEP(171), ZDHHC9(170), GPR142(169), IRF2(167), RAD51B(167), PTEN(163), C1orf127(162), XKR3(157), ACTR8(156), KLRB1(154), LDLRAD3(154), CABCOCO1(154), LYRM7(153), GSTZ1(153), BTN2A2(151), UNC79(151), MAP2K6(148), TH(147), ZSCAN21(145), MMGT1(145), YBEY(144), PAX7(144), NEDD8(143), POTEI(142), GTF2B(140), GSTZ1(139), MAP6D1(139), NFE2(138), CLNK(137), NPR3(136), CDK4(136), EXOC3-AS1(134), HSPA1A(132), PAX7(131), TAPBPL(131), KLRB1(131), DNAJB5(131), HSPA9(130), MCM5(128), CDK6(128), QARS1(128), CDK16(127), BIRC3(125), ADCY3(125), LCK(125), AL355916.3(125), GPR107(124), KCNH6(124), QPRT(123), PCDHB3(122), SCG2(121), C2orf15(121), TIE1(120), PLEKHH1(119), STX7(119), INSR(119), HDAC1(118), ZFAND4(116), ZNF75D(116), CDK2(115), PRECSIT(114), ING2(114), MGAM(114), C3orf62(113), CPT1A(113), HES5(113), SLC18A1(112), EFCAB12(112), FOXR2(112), EPHA5(111), ARMH1(110), ISG15(110), MAP2K6(109), C6(108), BSND(108), CTSF(108), NDUFB1(108), FAM47E-STBD1(105), BMP7(104), ARMC1(104), DCUN1D4(104), FGF2(102), TMEM155(102), CADM4(101), RND2(99), ENPEP(99), QARS1(98), AK7(98), IDNK(97), IKZF3(97), RAP1A(97), CREB1(97), GFI1(97), ACTL10(97), CACNA1H(96), CFHR1(96), TOP2B(95), ELAVL1(94), GNA11(93), C16orf71(93), SLC20A2(93), PLEKHA8P1(92), FYB2(92), PCDHGA11(92), RSPH1(92), BEND5(90), GCSAM(89), EMC2(88), MATK(88), C7orf77(87), SLC1A4(87), GALNT9(86), EIF5AL1(86), PARP3(86), LACTB2(86), TPMT(85), CD1A(84), B4GALT1(82), DISP2(82), SEPTIN12(81), LST1(81), KRTCAP3(80), CCL5(80), CCNA1(79), HHIPL2(79), PLG(79), TNF(79), SLA(77), UGT2B4(77), GBP2(76), EN2(76), CDHR4(76), RAB2A(75), CACNG3(74), PRAMEF11(74), LINC02694(73), Z98752.3(73), OAS3(73), TMEM14B(72), CA2(72), IL6(72), NEUROG2(72), OR5K2(72), CCL5(71), LYPD4(71), VSIG1(70), TTLL5(70), CD163L1(69), EN2(69), RSKR(69), PRPF38B(68), CFAP57(68), ARG2(68), SEC14L2(67), OTUD3(67), RGL3(67), HDAC9(67), OAS2(67), ANKRD63(67), OR2I1P(67), PRSS2(66), UGDH(66), CCDC28B(65), C1QTNF7(65), SURF4(65), SCRT1(65), HINT3(64), UNC50(64), FOXF1(64), SKP1(64), GTPBP1(63), RASL11B(63), EPHB6(62), SMR3B(62), MYD88(62), PCSK4(62), AIMP1(62), TBC1D3E(62), YIPF4(61), TMEM156(61), DEFB104B(61), LYPD4(61), TAFA4(60), AGBL2(60), TTC39C(60), CYTL1(60), AL391650.1(60), RALA(60), RHOJ(60), JAK1(60), CHEK2(60), BAMBI(59), POLR2C(59), SVOPL(59), MTOR(59), SDHC(58), ZRSR2(58), PTGES3(58), APOL2(57), AFG1L(57), CCDC81(57), GPR171(57), STARD3NL(56), TBPL1(56), CRISP3(56), C1orf194(56), SPRR2B(56), MBLAC1(55), EPHA5(55), NAT16(54), KYAT3(54), ITGA2(54), JRKL(53), RAD51D(53), PIM2(52), RGS3(51), PDE4C(50), OR2I1P(50), SLC1A1(50), USP41(50), EPHB4(50), SCRN1(49), FYN(49), ADCY10(49), MAPK13(49), CRISP2(48), UBTF(48), TNN(48), FAM155B(48), CDK5(48), TTC16(48), CALB2(48), TIFAB(48), CCDC74B(47), ATF7IP2(47), MRE11(47), QPRT(47), RPL28(47), YWHAG(47), LIMCH1(46), FOXQ1(46), OR5AU1(46), SCUBE2(46), MINDY4B(46), SLC25A43(45), APOBEC3F(45), NKX2-1(45), LPAR4(45), CCDC169-SOHLH2(45), PDE4C(45), STXBP1(45), SCARB2(45), ACLY(44), RGS9(43), GSTT2B(43), CRCT1(43), HLA-DQB2(43), HSCB(43), AC090360.1(42), ISY1-RAB43(42), CBLN4(41), MAPKAPK3(41), TOGARAM2(41), IZUMO4(41), PDHA2(41), CCL19(41), NOL4(40), CCDC157(40), ISY1-RAB43(40), INSRR(40), TTLL5(40), MECP2(40), ALKBH1(39), CFAP251(39), STAG3(39), LHX9(39), PLXNB1(39), EFCAB12(39), LINC02694(39), TRMT2B(39), PCDH12(38), PRDM12(38), ATPSCKMT(38), WNT3A(38), HMHB1(38), C17orf67(38), PRSS2(38), CFAP299(37), PPIAL4E(37), ADRB1(37), MAPK6(37), MAJIN(37), RXFP1(37), MICU2(36), NDRG1(36), MAPK4(36), RHOC(36), FOXQ1(36), TUBA1A(36), IZUMO4(35), BCAN(35), HNRNPD(35), BATF(35), MAPK7(35), SLC2A4(35), C17orf67(35), PCDHB2(34), SPX(34), MORN2(34), FAM72C(34), SYK(34), Z84492.2(33), FAM72C(33), CABYR(32), MICB(32), FAM24B(32), HSPA5(32), GGT1(32), GSTT2B(32), GART(32), KLF11(32), SLC30A10(32), PLXNB3(32), PLEKHO1(31), ADRB1(31), HNRNPA1(31), SECISBP2L(31), ZNF556(31), GP6(31), KRT32(30), PSEN1(30), TESPA1(30), GASK1A(30), SCGB1C2(30), ENSG00000228439(29), ZNF750(29), RGS1(29), NOVA2(29), MEIOB(28), CCDC51(28), PCDHGA12(28), CAB39L(28), ACSL1(28), KIF5B(28), ZNF556(28), OR8H1(28), AL391650.1(28), SPATC1L(27), PLXNB3(27), RPL19(27), ACTG1(27), ANO3(26), HAUS2(26), RIPK2(26), CSN3(26), Z84492.2(26), FAM184B(25), PAK1(25), BATF(25), CYP4F11(25), AL162231.1(25), PCDHGA1(25), GSTM1(25), ERBB2(25), GNL3(25), RHOBTB3(25), CACNA1H(25), HDAC2(25), TRPC5OS(25), UNKL(24), KRT8P41(24), ANKRD54(24), MCM5(24), KIAA1191(24), RRAS2(24), PSD2(24), ITFG1(23), LRRC23(23), NFKB2(23), EPHA1(23), PDP1(23), CD3D(23), CXCR6(23), CLDN25(23), SEZ6(22), ZFAND1(22), ZNF326(22), C2orf91(22), PRKCZ(22), ABL1(22), CCND1(22), HIF3A(22), LIMD2(22), KIT(22), HMHB1(22), DUSP23(22), ALOX15(22), LIMD2(21), TRAPPC12(21), BEX5(21), CHCHD2P9(21), GATD3B(21), BAG1(21), GLRXP3(21), LCP1(21), ACTR1A(21), THAP8(21), H2AW(21), LIN28B(21), ATP6V1G2-DDX39B(21), NDST4(20), TNFRSF18(20), PCDHA2(20), FKBP5(20), DIRAS3(20), SCG2(20), TMEM225B(20), SOX30(19), NEXMIF(19), ATG4A(19), THAP8(19), FAM131A(19), LHFPL1(19), TMEM200C(19), CTNNA2(19), DNTTIP2(19), PSME1(19), SRF(19), CPLANE2(19), AC020909.1(19), RIBC1(19), BEX5(19), PEG3(19), AC012254.2(19), CCDC74A(18), BTBD6(18), FP565260.1(18), ACAA1(18), GSK3B(18), BLNK(18), RHEB(18), PSKH1(18), DNAAF3(18), TOX(18), ENSG00000274897(17), PLA2G2D(17), CNR1(17), ECHDC3(17), GPA33(17), ZNF589(17), CSKMT(17), CNR1(17), CASP9(17), PCSK6(17), NTRK3(17), CACNG8(17), IVL(17), FAM178B(17), GPR25(17), LKAAEAR1(17), FAM162B(17), TRIQK(17), LINC01036(17), NUB1(16), CS(16), PEX10(16), RIBC1(16), TMEM238L(16), MGLL(16), MYH14(16), SNX3(16), PRLHR(16), ADCYAP1(16), CCDC81(16), AC092143.1(16), HLA-DOB(16), ZP1(15), FAM81B(15), FAM111A(15), NUDT17(15), RAET1G(15), LRRC8A(15), CYP2C9(15), ZNF394(15), HSPA4L(15), MRGPRG(15), POTEKP(15), NAT14(14), SLC39A8(14), NEK10(14), BAALC(14), GP9(14), C2CD4A(14), ENSG00000274897(14), PGR(14), HACE1(14), HUNK(14), FHAD1(14), ACKR3(14), VIP(14), CCDC74B(14), YWHAZ(14), CXXC4(14), AL162231.1(14), IGF2R(14), IGSF9B(13), AMBRA1(13), WDR38(13), THAP9(13), CDK5R2(13), SPDYC(13), PRRT4(13), SPTY2D1OS(13), CD6(13), PNPLA6(13), IGFALS(13), RHBDL1(13), ACTRT1(13), PDE6B(13), DERL1(13), BCL2A1(13), IQSEC1(13), ZNF449(13), GRB2(13), HTR1D(13), C1orf194(13), RGS9BP(13), MRTFA(13), ZBED1(13), LHX1(13), GATD3B(13), REC8(12), NTSR1(12), TMOD2(12), MCOLN2(12), PSKH1(12), TPCN1(12), TUBGCP5(12), NUB1(12), FGFR2(12), ACACB(12), CREM(12), GSK3A(12), BCHE(12), CALML4(12), USP26(12), SCRN1(12), WT1-AS(12), TTC32(12), C5orf60(12), C6orf226(12), LTB(12), PRR20E(12), JRK(12), TUBA4B(12), RBM15B(12), PCDHB16(12), TUBGCP5(12), TMEM98(11), ERF(11), CYTIP(11), NEU2(11), SSX2IP(11), STRA6(11), CAMK4(11), CYP2S1(11), L34079.1(11), SH2D2A(11), MED17(11), ALKBH1(11), APEX1(11), GHRHR(11), GABRA4(11), OCRL(11), NGDN(11), NDST4(11), IL21(11), GPA33(11), HSP90B1(11), NSG2(11), PDE3A(11), TIGIT(11), C6orf120(11), NPIPB9(11), MYL4(11), TMEM200C(11), ZNF321P(11), KLRC4-KLRK1(11), URB1-AS1(11), AC091167.6(11), Z83844.1(10), BAG1(10), SAP130(10), SDHAF3(10), ZNF705G(10), HEBP2(10), IGSF9B(10), MCOLN1(10), HSD17B7P2(10), YY1(10), PPP2CB(10), AMH(10), MET(10), TMEM245(10), AMBRA1(10), FAM120B(10), APC2(10), CDK18(10), GPR42(10), SLC4A10(10), SCN3A(10), TDRD10(10), SUN1(10), ADRA1B(10), FRG2C(10), ROBO2(10), TOGARAM2(10), PRMT6(10), C2orf72(10), COG8(10), PRRT4(10), H2AL1RP(10), CDK11B(10), EML2-AS1(10), IL12B(9), CFAP94(9), RTL8C(9), TRPV3(9), CTSW(9), APOM(9), RBM15B(9), DGAT2(9), CS(9), ACTB(9), TYK2(9), TP53I3(9), FAM199X(9), MEA1(9), PNKD(9), RHOB(9), TIRAP(9), LRGUK(9), KCNE2(9), TMIGD2(9), ADCY6(9), NUDT17(9), C19orf54(9), TMEM253(9), IFITM10(9), CHMP4A(9), CDH19(8), LAMP3(8), ADGRB2(8), CISD1(8), MED18(8), IGSF11(8), EI24(8), ZNF208(8), ALKAL1(8), KRTAP3-3(8), SFTA3(8), SRD5A2(8), CREBBP(8), ST3GAL1(8), RHOBTB2(8), ERCC1(8), CPS1(8), FOXP3(8), IP6K2(8), CAD(8), ESR1(8), RASD2(8), REC8(8), PARD6A(8), IL12B(8), RND3(8), MEF2D(8), GBP1(8), C20orf85(8), PCK1(8), PCNA(8), GABBR2(8), AIG1(8), GPAT4(8), TAGLN2(8), RPL27A(8), NAB2(8), THAP9(8), CLVS1(8), WDFY3-AS2(8), NAP1L1(8), TAF9B(8), OR7D2(8), UBQLN2(8), CLEC9A(8), LINC01588(8), AL512785.2(8), TSPY1(8), PEX3(7), PHF23(7), PLGRKT(7), SLAIN1(7), ZNF222(7), COX6B2(7), LALBA(7), EMB(7), CTXN1(7), SH3D21(7), XKR9(7), TTC4(7), IGLL5(7), SMIM17(7), MMP25(7), ZNF275(7), TFPI2(7), SLC29A1(7), PASK(7), SUMO1(7), CD207(7), SGK1(7), OASL(7), SDHC(7), CALM2(7), MTA2(7), DIP2C(7), EIF5B(7), MRPS18C(7), F2RL2(7), RET(7), CYP2S1(7), SMIM4(7), CDH2(7), BFSP2(7), LHFPL1(7), PRKG1(7), CHCHD2P9(7), SELL(7), ALKAL1(7), ACCSL(7), KRTAP5-6(7), UBA52(7), USP17L15(7), PPIAL4D(7), THTPA(7), AC087289.3(7), MAGEA9B(7), FAM214B(6), SH2D2A(6), MOSPD1(6), COTL1(6), CCDC9(6), THEM6(6), ST6GALNAC4(6), C1orf94(6), TUBA3E(6), NFIA(6), WDR41(6), MGAT5B(6), PAQR8(6), C12orf66(6), FGD6(6), OOEP(6), GMNC(6), OR2A1(6), AC011479.1(6), SYT1(6), RPS6KA2(6), PRKACA(6), KAT6A(6), MAPRE3(6), CABP7(6), CRHR2(6), ZCCHC17(6), SNX9(6), EMP1(6), RPL11(6), CELSR2(6), C11orf49(6), TUBA3E(6), XRCC4(6), CAMK4(6), FAM81B(6), WNT3A(6), TFF1(6), WDR41(6), STK17A(6), ABCA1(6), MTNR1A(6), CLIC3(6), NLGN1(6), CMTM8(6), SLC23A1(6), CES3(6), FGD6(6), DGAT1(6), NBPF4(6), DTHD1(6), RAET1G(6), TMA7(6), APOBEC3G(6), AC090360.1(6), ZNF587B(6), PRAG1(6), FCGBP(6), LYZL6(6), ARSF(5), FOLR3(5), UPK1B(5), SPINK4(5), GPR45(5), ENDOV(5), HLA-DQA1(5), DCAF12L2(5), TTC25(5), URGCP-MRPS24(5), PLXND1(5), TMEM98(5), HSD17B6(5), ATP6V0A1(5), RPL31(5), LAMP3(5), NAT14(5), EXOC1(5), MMP9(5), NTSR1(5), DMAC2(5), EZH2(5), STX2(5), FRK(5), HHLA2(5), CHMP3(5), AKT3(5), SERPINC1(5), NUP43(5), ADGRB2(5), PDZD2(5), NOTCH2(5), TRIM45(5), HNRNPA1(5), REPS1(5), ANK2(5), MARCHF6(5), YIPF5(5), ANK3(5), ARL11(5), TNFRSF14(5), ADAM9(5), CYP4F11(5), CCDC121(5), RPS6KA3(5), CTXN1(5), TP53TG1(5), NAP1L2(5), TPRG1(5), TMEM221(5), SUMO2(5), KRT40(5), SPINK8(5), GOLGA8N(5), TSPY4(5), IGLL5(5), MMP12(5), TMEM238L(5), GABRQ(5), FP565260.2(5), PLXND1(4), PARP12(4), KAT6A(4), SLC5A5(4), UNC93B1(4), GTF3A(4), TSGA10(4), LMBR1L(4), CCNO(4), FBXO43(4), LBHD1(4), OXR1(4), CCDC103(4), TMC7(4), VPS37D(4), GPR157(4), PGBD4(4), SCFD2(4), PLEKHN1(4), SAXO2(4), WDSUB1(4), DISP3(4), CNEP1R1(4), STRC(4), PARP12(4), DDX43(4), DLG3(4), ZNF416(4), PDE6C(4), TIMM9(4), ZDHHC15(4), TOX3(4), PRKAG2(4), TASOR2(4), UNC93B1(4), PTPN5(4), STC2(4), EEF1B2(4), ERRFI1(4), SFPQ(4), GADD45A(4), RPF1(4), HS3ST2(4), MORF4L2(4), MED18(4), CCNA1(4), DPH6(4), ECHDC3(4), CCNJL(4), P2RX4(4), TSGA10(4), CXCL9(4), PPP3CA(4), SLC39A8(4), FURIN(4), MARVELD3(4), ARFGAP2(4), CC2D1B(4), GBP5(4), LRRC43(4), CCDC116(4), NFIA(4), C1orf189(4), RHO(4), LMBRD2(4), IFI27L1(4), TRPV3(4), TMC7(4), PRKCE(4), ENDOV(4), H2BC4(4), PRR36(4), DDX41(4), NBPF6(4), ERAS(4), CERKL(4), WDSUB1(4), STK39(4), CCDC160(4), TTC25(4), GMNC(4), CXorf49(4), OR2A1(4), NEDD8-MDP1(4), AC010326.2(4), SRD5A2(4), ENSG00000261833(3), HPS4(3), ISYNA1(3), TMEM245(3), IRGC(3), IGFLR1(3), TNFRSF19(3), DPH6(3), MARVELD3(3), POMGNT2(3), ZNF256(3), SDHAF4(3), NCAM2(3), CDK19(3), PDIA3(3), PSCA(3), RPSA(3), MSANTD4(3), GPR132(3), VEPH1(3), FAM114A1(3), ZNF560(3), C11orf98(3), ZMYND10(3), TRAF3IP3(3), CD74(3), GABARAPL2(3), SOX30(3), PHF23(3), XK(3), GINM1(3), DCX(3), MOXD1(3), EPDR1(3), CHGB(3), MFSD11(3), HPS4(3), Z83844.1(3), ABCD1(3), BMF(3), BPNT2(3), HNRNPUL1(3), ISYNA1(3), BLVRA(3), MAP3K8(3), FOLR3(3), CD83(3), GHR(3), RNF7(3), RTN4(3), ADPRS(3), MYB(3), FOXO3(3), NUDCD1(3), HERPUD2(3), MAX(3), LSM8(3), IFT22(3), DLL4(3), SAG(3), SAMD10(3), MORC4(3), EPHB2(3), KLHL36(3), GPR55(3), CCDC115(3), MMP7(3), COPS4(3), CLBA1(3), EVA1B(3), RALB(3), ANO7(3), UGCG(3), CAMK2G(3), PAK1(3), MERTK(3), ZUP1(3), ZNF18(3), MOV10(3), CD1C(3), CCDC24(3), LSS(3), COX6B2(3), TAL1(3), CDC20B(3), SSX3(3), FAM111A(3), MEI1(3), TRIM49(3), MUC15(3), CST2(3), CCDC106(3), RMDN1(3), PGBD5(3), HLA-DQB1(3), R3HDM2(3), SEPTIN1(3), C11orf54(3), GBP6(3), DOCK8-AS1(3), SDR42E2(3), POLR1D(3), PNRC2(3), SERPINA3(3), SDHAF3(3), ELOVL2(3), TMEM229B(3), HOXC4(3), OOEP(3), LRRC73(3), PSMB8(3), ERICH2(3), C2orf91(3), DIO2(3), KRT8P41(3), MCTS1(3), PEG10(3), PCDHAC2(3), NAA80(3), AL691442.1(3), SRSF8(3), AC024592.3(3), AC243967.1(3), SMIM17(3), AL591806.2(3), URGCP-MRPS24(3), AL603832.3(3), H4C9(3), ZMYND10(2), ZNF416(2), SIRPG(2), APOL4(2), GABRE(2), FGF8(2), FBXO9(2), SPRYD7(2), GTSF1L(2), TTI2(2), TCN1(2), TMEM60(2), BTBD16(2), B4GALNT3(2), ARHGAP26(2), SUSD3(2), DRC1(2), TMEM174(2), ENOX2(2), TMEM130(2), HES3(2), LAMTOR4(2), PLEKHG4(2), CRYBA4(2), SPINK8(2), TAPBP(2), AP000311.1(2), CFTR(2), SARM1(2), FAM214B(2), AKAP8L(2), CCDC88C(2), STMN4(2), SEC63(2), PEX3(2), ARSF(2), GNAI3(2), FRMPD1(2), NSF(2), REXO2(2), AMPH(2), CHMP2B(2), IRAK3(2), RAB18(2), PVALB(2), EP300(2), PLEK2(2), PNN(2), GLA(2), AKT2(2), PLEKHA4(2), PMPCB(2), SPOCK2(2), RPS6KB1(2), MMD(2), COMMD9(2), ATP5F1B(2), IQCG(2), CYTIP(2), VAMP4(2), CFAP94(2), CCDC92(2), SFRP5(2), TRIM25(2), GTSF1L(2), SCGB1D2(2), INSIG2(2), IGFLR1(2), PZP(2), FGD3(2), EPS15L1(2), GAD1(2), THEM6(2), CAMSAP1(2), LANCL2(2), REEP2(2), IRAK2(2), FKBP11(2), TCN1(2), GPR45(2), IL10(2), TLR4(2), GRHPR(2), FGFBP1(2), STRA6(2), SLAIN1(2), GATA6(2), C1orf94(2), ITGA10(2), LYG1(2), POMGNT2(2), SNCA(2), ARHGAP26(2), CNBD2(2), CCDC102B(2), CLGN(2), MCOLN2(2), SDHAF4(2), NCAM2(2), OTUD6B(2), ADK(2), SUSD3(2), CBR1(2), TMEM190(2), MEIOB(2), LBHD1(2), ATF3(2), ACP6(2), DAPL1(2), NEK10(2), ZNF589(2), FABP7(2), OXR1(2), TMEM130(2), PRKCB(2), RRAD(2), C15orf48(2), CCDC103(2), LALBA(2), PSCA(2), TMEM223(2), PCSK9(2), CD52(2), AGPAT2(2), TMEM192(2), PAQR8(2), RSL1D1(2), ZNF274(2), TTC36(2), RASGRP1(2), HES3(2), ZNF25(2), VPS37D(2), C15orf56(2), CALML3(2), ERN1(2), OR4A15(2), UBA7(2), CAMK1D(2), C19orf71(2), ZNF730(2), LRRC55(2), SCFD2(2), ZNF284(2), KRTAP19-2(2), RNF220(2), OR7A5(2), MAGEB16(2), HLA-DRB1(2), CRYBA4(2), HLA-DQA1(2), SPTAN1(2), FAM114A1(2), CNGA1(2), C2CD4A(2), AGPAT1(2), CFAP99(2), LNP1(2), ZNF99(2), HNRNPUL2(2), AP000790.1(2), ACSM4(2), POTEJ(2), GAGE12H(2), PLEKHM1(2), TAPBP(2), MPC1L(2), ZNF722P(2), PSG4(2), OSTCP1(2), CDK3(2), CLDN23(2), AC011479.1(2), L34079.1(2), AC114490.2(2), TBC1D3K(2), TMEM269(2), AC036214.3(2), AC244517.10(2), ENSG00000243444(1), FGR(1), RGPD5(1), OTC(1), FLT4(1), ZIC2(1), RAD51(1), CDK17(1), MPC1(1), RHOBTB1(1), P4HA2(1), TEAD2(1), SCGN(1), OSTM1(1), FAM234B(1), PIR(1), RBBP9(1), RPGRIP1(1), UPRT(1), MYO3A(1), LGALS2(1), APOL4(1), TRIB3(1), OXT(1), NKAP(1), MOSPD1(1), ASB9(1), GABRE(1), RPAP1(1), RHOV(1), POP1(1), UBXN8(1), EPHX3(1), NUMBL(1), MEIS3(1), GRB10(1), CCL24(1), TYRP1(1), B9D1(1), APOC3(1), SLC11A2(1), GLI1(1), PDE10A(1), FAM172A(1), HRH2(1), WNT5A(1), SLC41A3(1), CCT4(1), GBP3(1), SLC19A2(1), MESD(1), BBOF1(1), IFIT2(1), MXI1(1), PPP3CC(1), AKAP1(1), CSTA(1), GTF3A(1), CISD1(1), SPRYD7(1), TUBA1B(1), PLP1(1), DDX27(1), KCNK17(1), BFSP1(1), ST3GAL3(1), SYNGR3(1), SRD5A3(1), HOXD1(1), TTI2(1), DOCK6(1), PRRG1(1), ABCB7(1), ACTR10(1), ZSWIM3(1), ZBED3(1), SFTPD(1), TMTC1(1), GRP(1), BIVM(1), ERCC5(1), ADAMTS8(1), KLB(1), TMEM60(1), MRAP2(1), TAAR5(1), CYP27A1(1), NKX2-1(1), CHAD(1), SAP130(1), KLF4(1), WDR38(1), PIM1(1), CYP1B1(1), PLCE1(1), CIR1(1), HNRNPD(1), NAAA(1), CLSTN3(1), GPR84(1), WDR93(1), BCAS3(1), DYM(1), DPP9(1), TRPM2(1), SIGLEC10(1), WDTC1(1), NECTIN4(1), DUSP10(1), THNSL2(1), GIN1(1), GTF2H2(1), CRIP3(1), IGSF1(1), BIN3(1), HIKESHI(1), MTMR12(1), RABGAP1L(1), ZSCAN1(1), GPR180(1), ANKRD22(1), CIBAR2(1), KLF10(1), OXA1L(1), FAM81A(1), DYRK1A(1), PEX10(1), CCAR2(1), C1R(1), ACE(1), ZNF208(1), LCN1(1), COX7A1(1), SSTR5(1), RPL29(1), LRATD1(1), TIPARP(1), IL17RE(1), PGRMC2(1), ANAPC10(1), CASP3(1), SAP30L(1), FBXO33(1), AKR1E2(1), OXGR1(1), UCMA(1), FAM204A(1), ENOX2(1), PPP1R36(1), VWA2(1), SGPL1(1), MRPL16(1), CABP2(1), MGAT5B(1), GNG4(1), IL7R(1), ACTBL2(1), SIN3A(1), GP9(1), COX7B2(1), IRX2(1), ZNF672(1), CHST11(1), ENC1(1), CTSW(1), COL6A5(1), HSPA6(1), RHOD(1), TRIB1(1), RBM4(1), TMEM81(1), LEP(1), BTC(1), SART1(1), LONRF3(1), TMEM270(1), LRRN1(1), ZNF135(1), FUT2(1), PPFIA3(1), MAGEF1(1), C18orf32(1), DPY19L3(1), FOXE1(1), GAK(1), SNX18(1), TSPYL5(1), OR51E1(1), NPM1(1), FAM89A(1), PGBD4(1), ZNF623(1), GPR132(1), PRR32(1), RP1L1(1), MRGPRX2(1), NUDT14(1), KMT5A(1), EIF3C(1), ACTRT3(1), SH3BGR(1), P4HB(1), MORN5(1), PCYT2(1), CCDC73(1), PLEKHN1(1), NANOS1(1), SAXO2(1), RHCE(1), LRRK2(1), SYCP2(1), SRGAP2B(1), NPIPB15(1), FAM163B(1), ZNF470(1), ADAM32(1), ZNF560(1), HMGN5(1), RPS6KL1(1), DCAF12L2(1), NOS1AP(1), RORB(1), SP5(1), CASP12(1), C6orf47(1), RNF39(1), DISP3(1), LINC01556(1), CNEP1R1(1), ITPRIPL2(1), KLRC2(1), TTLL13P(1), RBMXL1(1), ZNF888(1), SPDYE3(1), RAD51AP2(1), GPR33(1), C16orf90(1), ZNF705G(1), FMO9P(1), C7orf65(1), CENPVL1(1), HNRNPA1P48(1), FAM236D(1), C5orf67(1), SBK3(1), MCIDAS(1), ZNF853(1), KIR3DL2(1), TDGF1(1), PSG11(1), AMY2A(1), SMIM34A(1), TTC4(1), ZCCHC3(1), ARPIN-AP3S2(1), SHANK3(1), INMT-MINDY4(1), AC068775.1(1), AC018523.2(1), AC025165.3(1), C17orf49(1), AC005726.1(1), GH1(1), AC073508.2(1), ANXA8(1), AC007998.2(1), AC069257.3(1), ARL2-SNX15(1), F8A2(1), TBC1D3B(1), CCL4L2(1), CCL3L3(1), FP565260.3(1), CCL3(1), C11orf98(1)
[INFO] Coefs. list
[1] “ABCB5, ADGRL3, AMBN, APOH, APOOL, CCL1, CD99L2, CEL, CLEC3A, CLRN2, CPLX3, DEFB106B, ELP6, ESRRG, FEZF2, FLT3, FOXQ1, GUCY2D, H2BU1, HDGFL1, KCNK3, KIR2DP1, LCE3C, LCE3D, LHX5, LRP11, LRRFIP2, MAFA, MAGEB6B, MCOLN1, MECP2, NCOR1P1, NFKBIA, OR10P1, OR2T5, PELO, PRLHR, PSME2, PSPC1, PTCHD4, PYY3, RDH11, RGS3, RPH3A, RUNX1, SCG2, SERINC4, SERPINA1, SIAH2, SKOR2, SPRR4, SVOPL, TCL6, WWOX, ZBED6CL, ZNF75D”
[INFO] Coefs. list
[1] “ACTC1, ALB, CD8A, CDC42, CDK14, CDK5, CTNNB1, EGFR, EIF5AL1, EPHA3, ERAS, F2, FAU, FEZF2, FLT3, FOS, GAPDH, GNA11, GUCY2D, HRAS, HSP90AA1, JAK2, JUN, KAT2B, LEF1, MAPK1, MAPK11, MGAM, NFKBIA, NOS1, NOS3, NOTCH1, NRAS, PCSK1, PIK3CA, POTEE, PRDM10, PRKG2, RAC1, RAC3, REM2, RPS6KA1, SERPINA1, SRC, TBP, TBPL2, TOP2A, TOP2B, TSPO, TUBB4A, UBC, UBD, UBL4A, UBL4B, WT1, WWOX, YES1”
[INFO] Coefs. list
[1] “ENSG00000012171, ENSG00000091583, ENSG00000092199, ENSG00000093167, ENSG00000095932, ENSG00000120256, ENSG00000121871, ENSG00000122375, ENSG00000124343, ENSG00000130720, ENSG00000131080, ENSG00000148426, ENSG00000153485, ENSG00000155008, ENSG00000163166, ENSG00000163202, ENSG00000164744, ENSG00000166509, ENSG00000170270, ENSG00000172667, ENSG00000172967, ENSG00000178522, ENSG00000178997, ENSG00000179363, ENSG00000181977, ENSG00000182759, ENSG00000184716, ENSG00000185028, ENSG00000186075, ENSG00000187082, ENSG00000187416, ENSG00000187754, ENSG00000188735, ENSG00000196406, ENSG00000197584, ENSG00000203661, ENSG00000204450, ENSG00000205517, ENSG00000213578, ENSG00000215474, ENSG00000225880, ENSG00000230445, ENSG00000232948, ENSG00000235453, ENSG00000239887, ENSG00000242473, ENSG00000243284, ENSG00000244057, ENSG00000244694, ENSG00000249581, ENSG00000251493, ENSG00000259288, ENSG00000263201, ENSG00000275163, ENSG00000275553, ENSG00000278599”
[INFO] Coefs. list
[1] “ABCB5, AC117457.1, APOH, APOOL, CCDC97, CEL, CLEC4M, CPLX3, ENSG00000281028, EPB41L4B, ERP27, FLT3, GPR152, HNRNPC, IL13RA2, KCNMB2, KIR2DP1, LCE3C, LCE3D, LHFPL3, LHX5, LRP11, MAGEB6B, NFE2, NGB, NOS2, PRAMEF17, PSPC1, PTCHD4, RBMY1E, RELB, RIOX1, RPH3A, SERPINA1, SIAH2, SKOR2, SLC16A2, SLC1A1, SLITRK3, TRIM64, USP17L17, VSIG8, VWC2, YBEY”
[INFO] Coefs. list
[1] “ACTC1, ALB, CD8A, CDC42, CDK14, CDK5, CTNNB1, EGFR, EIF5AL1, EPHA3, ERAS, F2, FAU, FEZF2, FLT3, FOS, GAPDH, GNA11, GUCY2D, HRAS, HSP90AA1, JAK2, JUN, KAT2B, LEF1, MAPK1, MAPK11, MGAM, NFKBIA, NOS1, NOS3, NOTCH1, NRAS, PCSK1, PIK3CA, POTEE, PRDM10, PRKG2, RAC1, RAC3, REM2, RPS6KA1, SERPINA1, SRC, TBP, TBPL2, TOP2A, TOP2B, TSPO, TUBB4A, UBC, UBD, UBL4A, UBL4B, WT1, WWOX, YES1”
[INFO] Coefs. list
[1] “AC069503.2, AC117457.1, AMBN, APOH, APOOL, CCDC81, CCDC83, CD1E, CD99L2, CEL, CLEC3A, CLRN2, CPLX3, CXorf49B, CXorf56, DEFB106B, ERICH4, FAM71A, FYB2, GREB1L, H2BU1, HDGFL1, KCNMB2, KIR2DP1, LCE3C, LCE3D, LRP11, LRRFIP2, MAFA, MAGEB6B, NCOR1P1, OR2T5, PTCHD4, PYY3, RIOX1, RPH3A, SERINC4, SKOR2, SLC16A2, SMIM24, SPRR4, STBD1, TBC1D3E, TCL6, TMEM251, ZBED6CL”
NULL
## [INFO] balanced.sets: TRUE
## [INFO] calc.params.old: FALSE
## [INFO] coding.genes: TRUE
## [INFO] degree.correlation: pearson
## [INFO] degree.cutoff: 0.000
## [INFO] degree.type: string
## [INFO] degree.unweighted: TRUE
## [INFO] handle.duplicates: keep_first
## [INFO] log2: TRUE
## [INFO] n.cores: 14.000
## [INFO] normalization: center
## [INFO] ntimes: 5000.000
## [INFO] project: brca.data.2018.09.13
## [INFO] seed: 1985.000
## [INFO] subset: Inf
## [INFO] subtract.surv.column: (I do not know how to display this)
## [INFO] target.vars: list(alpha = 0.2, vars = 39), list(alpha = 0.2, vars = 56), list(alpha = 0.2, vars = 42)
## [INFO] tissue: primary.solid.tumor
## [INFO] train: 0.800